Genome-Wide Association Study of the Reproductive Traits of the Dazu Black Goat (Capra hircus) Using Whole-Genome Resequencing

Reproductive traits are the basic economic traits of goats and important indicators in goat breeding. In this study, Dazu black goats (DBGs; n = 150), an important Chinese local goat breed with excellent reproductive performance, were used to screen for important variation loci and genes of reproduc...

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Published inGenes Vol. 14; no. 10; p. 1960
Main Authors Fang, Xingqiang, Gu, Bowen, Chen, Meixi, Sun, Ruifan, Zhang, Jipan, Zhao, Le, Zhao, Yongju
Format Journal Article
LanguageEnglish
Published Basel MDPI AG 01.10.2023
MDPI
Subjects
Annotations
Chromosomes
Fibroblast growth factor receptor 2
Genes
Genome-wide association studies
Genomes
Genomics
Genotype & phenotype
Goats
Litter size
Parity
Quality control
Single nucleotide polymorphisms
Single-nucleotide polymorphism
Supernumerary
Udder
China
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Abstract Reproductive traits are the basic economic traits of goats and important indicators in goat breeding. In this study, Dazu black goats (DBGs; n = 150), an important Chinese local goat breed with excellent reproductive performance, were used to screen for important variation loci and genes of reproductive traits. Through genome-wide association studies (GWAS), 18 SNPs were found to be associated with kidding traits (average litter size, average litter size in the first three parity, and average litter size in the first six parity), and 10 SNPs were associated with udder traits (udder depth, teat diameter, teat length, and supernumerary teat). After gene annotation of the associated SNPs and in combination with relevant references, the candidate genes, namely ATP1A1, LRRC4C, SPCS2, XRRA1, CELF4, NTM, TMEM45B, ATE1, and FGFR2, were associated with udder traits, while the ENSCHIG00000017110, SLC9A8, GLRB, GRIA2, GASK1B, and ENSCHIG00000026285 genes were associated with litter size. These SNPs and candidate genes can provide useful biological information for improvement of the reproductive traits of goats.
AbstractList Reproductive traits are the basic economic traits of goats and important indicators in goat breeding. In this study, Dazu black goats (DBGs; n = 150), an important Chinese local goat breed with excellent reproductive performance, were used to screen for important variation loci and genes of reproductive traits. Through genome-wide association studies (GWAS), 18 SNPs were found to be associated with kidding traits (average litter size, average litter size in the first three parity, and average litter size in the first six parity), and 10 SNPs were associated with udder traits (udder depth, teat diameter, teat length, and supernumerary teat). After gene annotation of the associated SNPs and in combination with relevant references, the candidate genes, namely ATP1A1 , LRRC4C , SPCS2 , XRRA1 , CELF4 , NTM , TMEM45B , ATE1 , and FGFR2 , were associated with udder traits, while the ENSCHIG00000017110 , SLC9A8 , GLRB , GRIA2 , GASK1B , and ENSCHIG00000026285 genes were associated with litter size. These SNPs and candidate genes can provide useful biological information for improvement of the reproductive traits of goats.
Reproductive traits are the basic economic traits of goats and important indicators in goat breeding. In this study, Dazu black goats (DBGs; n = 150), an important Chinese local goat breed with excellent reproductive performance, were used to screen for important variation loci and genes of reproductive traits. Through genome-wide association studies (GWAS), 18 SNPs were found to be associated with kidding traits (average litter size, average litter size in the first three parity, and average litter size in the first six parity), and 10 SNPs were associated with udder traits (udder depth, teat diameter, teat length, and supernumerary teat). After gene annotation of the associated SNPs and in combination with relevant references, the candidate genes, namely ATP1A1, LRRC4C, SPCS2, XRRA1, CELF4, NTM, TMEM45B, ATE1, and FGFR2, were associated with udder traits, while the ENSCHIG00000017110, SLC9A8, GLRB, GRIA2, GASK1B, and ENSCHIG00000026285 genes were associated with litter size. These SNPs and candidate genes can provide useful biological information for improvement of the reproductive traits of goats.
Audience Academic
Author Zhao, Le
Sun, Ruifan
Gu, Bowen
Fang, Xingqiang
Chen, Meixi
Zhang, Jipan
Zhao, Yongju
AuthorAffiliation 1 College of Animal Science and Technology, Southwest University, Chongqing 400715, China; 15881044561@163.com (X.F.); gubw04@163.com (B.G.); chenmeixi529@163.com (M.C.); sunruifan111@163.com (R.S.); jpanzhang@live.com (J.Z.); zhaole0228@163.com (L.Z.)
2 Chongqing Key Laboratory of Herbivore Science, Chongqing 400715, China
3 Chongqing Key Laboratory of Forage & Herbivore, Chongqing 400715, China
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Snippet Reproductive traits are the basic economic traits of goats and important indicators in goat breeding. In this study, Dazu black goats (DBGs; n = 150), an...
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SubjectTerms Annotations
Chromosomes
Fibroblast growth factor receptor 2
Genes
Genome-wide association studies
Genomes
Genomics
Genotype & phenotype
Goats
Litter size
Parity
Quality control
Single nucleotide polymorphisms
Single-nucleotide polymorphism
Supernumerary
Udder
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Title Genome-Wide Association Study of the Reproductive Traits of the Dazu Black Goat (Capra hircus) Using Whole-Genome Resequencing
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Volume 14
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